Locus 3379

Sequence ID 2R_DroMel_CAF1
Location 11,434,928 – 11,435,048
Length 120
Max. P 0.944939
window5518 window5519

overview

Window 8

Location 11,434,928 – 11,435,048
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 93.67
Mean single sequence MFE -22.64
Consensus MFE -18.42
Energy contribution -19.86
Covariance contribution 1.44
Combinations/Pair 1.04
Mean z-score -2.00
Structure conservation index 0.81
SVM decision value 1.35
SVM RNA-class probability 0.944939
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 11434928 120 + 20766785
AUACAUUACAUCCAUUAGUAACCAAAAACAAAUCCGAAUGGAUUGACACAAGUCAAGAGUAUCGAUUAAAAUGCUUUUAUUGGAGCAAACAACAAAGGUUAUUGAAAGUUAUAACGGAAA
..........(((.(((((((((...........(((.....(((((....))))).....))).......((((((....)))))).........)))))))))..((....))))).. ( -24.50)
>DroSec_CAF1 53787 120 + 1
AUACAUUACAUCCAUUAGUAACCAAAAACAAAUCCGAAUGGAUUGACACAAGUCGAGAGUAUCGAUUAAAAUGCUUUUAUUGGAGCAAUCAACAAAGGUUAUUGAAAGUUAUAACGGAAA
..........(((.(((((((((.......(((((....)))))((....((((((.....))))))....((((((....)))))).))......)))))))))..((....))))).. ( -26.30)
>DroSim_CAF1 43790 120 + 1
AUACAUUAAAUCCAUUAGUAACCAAAAACAAAUCCGAAUGGAUUGACACAACUCAAGAGUAUCGAUUAAAAUGCUUUUAUUGGAGCAAACAACAAAGGUUAUUGAAAGUUAUAACGGAAA
..........(((.(((((((((.......(((((....))))).......(((((((((((........))))))))....)))...........)))))))))..((....))))).. ( -21.50)
>DroEre_CAF1 50539 120 + 1
AUUCAUUAAAUCCAUUAGUAAACAAAAACAAAUCCGAAUGGUUUGACAGAAGUCAAGAGUAUCGAUUAAAAUGCUUUUAUUGGAGCAAAUAACAAAGGCCUUUGAAAGUUAUAACGGAAA
..........(((.(((...(((...........(((....((((((....))))))....))).......((((((....)))))).....((((....))))...))).))).))).. ( -18.40)
>DroYak_CAF1 49328 120 + 1
GUACAUUACGUCCAUUAGUAACCAAAAACAAAUCCGAAUGGUUUGACAGAAGUCAAGAGUAUCGAUUAAAAUGCUUUUAUUGGCGCAAAUAACAAAGGCCAUUGAAAGUUACAACGGAAA
.....((((........))))...........((((.....((((((....))))))...............(((((((.((((.............)))).))))))).....)))).. ( -22.52)
>consensus
AUACAUUACAUCCAUUAGUAACCAAAAACAAAUCCGAAUGGAUUGACACAAGUCAAGAGUAUCGAUUAAAAUGCUUUUAUUGGAGCAAACAACAAAGGUUAUUGAAAGUUAUAACGGAAA
..........(((.(((((((((...........(((.....(((((....))))).....))).......((((((....)))))).........)))))))))..((....))))).. (-18.42 = -19.86 +   1.44)

alignment

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secondary structure

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dotplot

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Window 9

Location 11,434,928 – 11,435,048
Length 120
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 93.67
Mean single sequence MFE -24.50
Consensus MFE -19.34
Energy contribution -19.58
Covariance contribution 0.24
Combinations/Pair 1.11
Mean z-score -1.97
Structure conservation index 0.79
SVM decision value 0.88
SVM RNA-class probability 0.872634
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 11434928 120 - 20766785
UUUCCGUUAUAACUUUCAAUAACCUUUGUUGUUUGCUCCAAUAAAAGCAUUUUAAUCGAUACUCUUGACUUGUGUCAAUCCAUUCGGAUUUGUUUUUGGUUACUAAUGGAUGUAAUGUAU
..(((((((((((....((((((....))))))........((((((((........(((((.........)))))(((((....))))))))))))))))).))))))).......... ( -24.10)
>DroSec_CAF1 53787 120 - 1
UUUCCGUUAUAACUUUCAAUAACCUUUGUUGAUUGCUCCAAUAAAAGCAUUUUAAUCGAUACUCUCGACUUGUGUCAAUCCAUUCGGAUUUGUUUUUGGUUACUAAUGGAUGUAAUGUAU
..(((((((((((..((((((.....)))))).........((((((((........(((((.........)))))(((((....))))))))))))))))).))))))).......... ( -25.40)
>DroSim_CAF1 43790 120 - 1
UUUCCGUUAUAACUUUCAAUAACCUUUGUUGUUUGCUCCAAUAAAAGCAUUUUAAUCGAUACUCUUGAGUUGUGUCAAUCCAUUCGGAUUUGUUUUUGGUUACUAAUGGAUUUAAUGUAU
..(((((((((((....((((((....))))))........((((((((........(((((.........)))))(((((....))))))))))))))))).))))))).......... ( -24.10)
>DroEre_CAF1 50539 120 - 1
UUUCCGUUAUAACUUUCAAAGGCCUUUGUUAUUUGCUCCAAUAAAAGCAUUUUAAUCGAUACUCUUGACUUCUGUCAAACCAUUCGGAUUUGUUUUUGUUUACUAAUGGAUUUAAUGAAU
..(((((((.......(((((((....((((..((((........))))...))))(((.....(((((....))))).....))).....))))))).....))))))).......... ( -21.30)
>DroYak_CAF1 49328 120 - 1
UUUCCGUUGUAACUUUCAAUGGCCUUUGUUAUUUGCGCCAAUAAAAGCAUUUUAAUCGAUACUCUUGACUUCUGUCAAACCAUUCGGAUUUGUUUUUGGUUACUAAUGGACGUAAUGUAC
..(((((((((((......(((((..........).)))).((((((((..((...(((.....(((((....))))).....)))))..))))))))))))).)))))).......... ( -27.60)
>consensus
UUUCCGUUAUAACUUUCAAUAACCUUUGUUGUUUGCUCCAAUAAAAGCAUUUUAAUCGAUACUCUUGACUUGUGUCAAUCCAUUCGGAUUUGUUUUUGGUUACUAAUGGAUGUAAUGUAU
..(((((((((((....((((((....))))))........((((((((..((...(((.....(((((....))))).....)))))..)))))))))))).))))))).......... (-19.34 = -19.58 +   0.24)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:54:03 2006